AU2003300825A1 - Quantitative test for bacterial pathogens - Google Patents

Quantitative test for bacterial pathogens

Info

Publication number
AU2003300825A1
AU2003300825A1 AU2003300825A AU2003300825A AU2003300825A1 AU 2003300825 A1 AU2003300825 A1 AU 2003300825A1 AU 2003300825 A AU2003300825 A AU 2003300825A AU 2003300825 A AU2003300825 A AU 2003300825A AU 2003300825 A1 AU2003300825 A1 AU 2003300825A1
Authority
AU
Australia
Prior art keywords
hybridization
pathogens
amplification
indicative
nucleic acid
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Abandoned
Application number
AU2003300825A
Other versions
AU2003300825A8 (en
Inventor
Ellen J. Baron
Wolf-Dieter Engel
Gerd Haberhausen
Peter Kasper
Andreas M. Kogelnik
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
F Hoffmann La Roche AG
Leland Stanford Junior University
Original Assignee
F Hoffmann La Roche AG
Leland Stanford Junior University
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Priority claimed from EP02027272A external-priority patent/EP1426447A1/en
Application filed by F Hoffmann La Roche AG, Leland Stanford Junior University filed Critical F Hoffmann La Roche AG
Publication of AU2003300825A1 publication Critical patent/AU2003300825A1/en
Publication of AU2003300825A8 publication Critical patent/AU2003300825A8/en
Abandoned legal-status Critical Current

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/686—Polymerase chain reaction [PCR]
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6851—Quantitative amplification

Abstract

The present invention is directed to a method for identification of a pathogenic organism from a predetermined group of pathogens, comprising (i) isolating a clinical sample containing at least partially purified nucleic acid, (ii) subjecting at least a first aliquot of said clinical specimen to at least one amplification and detection reaction in one reaction vessel comprising (iia) an amplification step using at least a first set of amplification primers capable of amplifying a preselected nucleic acid sequence region from several or all members of said predetermined group of pathogens, (iib) a detection step using at least 2, 3 or multiple hybridization reagents, said reagents together being capable of specifically detecting a pre-selected nucleic acid sequence region from all members of said group of pathogens, said detection step (iib) comprising steps monitoring hybridization of each of said hybridization reagents at a pre-selected temperature, said hybridization being indicative for at least the genus of said pathogen present in the sample, and monitoring temperature dependence of hybridization, said temperature dependence being indicative for at least the species of said pathogen, and (iii) determining whether said amplification and detection reaction is indicative for the presence of a specific member of said pre-selected group of pathogens.
AU2003300825A 2002-12-06 2003-12-05 Quantitative test for bacterial pathogens Abandoned AU2003300825A1 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
EP02027272.0 2002-12-06
EP02027272A EP1426447A1 (en) 2002-12-06 2002-12-06 Method for the detection of pathogenic gram positive bacteria selected from the genera Staphylococcus, Enterococcus and Streptococcus
EP03007458.7 2003-04-04
EP03007458 2003-04-04
PCT/US2003/038783 WO2004053457A2 (en) 2002-12-06 2003-12-05 Quantitative test for bacterial pathogens

Publications (2)

Publication Number Publication Date
AU2003300825A1 true AU2003300825A1 (en) 2004-06-30
AU2003300825A8 AU2003300825A8 (en) 2004-06-30

Family

ID=32510124

Family Applications (2)

Application Number Title Priority Date Filing Date
AU2003289927A Abandoned AU2003289927A1 (en) 2002-12-06 2003-12-02 Multiplex assay detection of pathogenic organisms
AU2003300825A Abandoned AU2003300825A1 (en) 2002-12-06 2003-12-05 Quantitative test for bacterial pathogens

Family Applications Before (1)

Application Number Title Priority Date Filing Date
AU2003289927A Abandoned AU2003289927A1 (en) 2002-12-06 2003-12-02 Multiplex assay detection of pathogenic organisms

Country Status (9)

Country Link
US (1) US20060099596A1 (en)
EP (2) EP1570079B1 (en)
JP (2) JP4377375B2 (en)
CN (1) CN105349657A (en)
AT (1) ATE474933T1 (en)
AU (2) AU2003289927A1 (en)
CA (2) CA2507240C (en)
DE (1) DE60333480D1 (en)
WO (2) WO2004053155A1 (en)

Families Citing this family (17)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2003291483A1 (en) 2002-11-12 2004-06-03 Becton, Dickinson And Company Diagnosis of sepsis or sirs using biomarker profiles
EP1590469A4 (en) 2002-11-12 2005-12-28 Becton Dickinson Co Diagnosis of sepsis or sirs using biomarker profiles
US7718361B2 (en) 2002-12-06 2010-05-18 Roche Molecular Systems, Inc. Quantitative test for bacterial pathogens
ES2384170T3 (en) * 2003-04-04 2012-07-02 F. Hoffmann-La Roche Ag Enhanced real-time multi-color PCR system
BRPI0609302A2 (en) 2005-04-15 2011-10-11 Becton Dickinson Co methods for predicting the development of sepsis and for diagnosing sepsis in an individual to be tested, microarray, kit for predicting the development of sepsis in an individual to be tested, computer program product, computer, computer system for determining if an individual is likely to develop sepsis, digital signal embedded in a carrier wave, and, graphical user interface to determine if an individual is likely to develop sepsis
US20090286691A1 (en) * 2006-01-20 2009-11-19 Genein Co., Ltd. Oligonucleotide for Detection of Bacteria Associated with Sepsis and Microarrays and Method for Detection of the Bacteria Using the Oligonucleotide
JP4590573B2 (en) * 2006-02-21 2010-12-01 国立大学法人富山大学 Rapid identification of infection-causing bacteria
US8535888B2 (en) * 2006-12-29 2013-09-17 Mayo Foundation For Medical Education And Research Compositions and methods for detecting methicillin-resistant S. aureus
DE102007041864B4 (en) 2007-09-04 2012-05-03 Sirs-Lab Gmbh Method for the detection of bacteria and fungi
US8669113B2 (en) 2008-04-03 2014-03-11 Becton, Dickinson And Company Advanced detection of sepsis
EP2516678A4 (en) * 2009-12-24 2013-06-19 Seegene Inc Real-time multiplexing detection of target nucleic acid sequences with elimination of false signals
WO2012073053A1 (en) * 2010-11-30 2012-06-07 Diagon Kft. Procedure for nucleic acid-based molecular diagnostic determination of bacterial germ counts and kit for this purpose
US20150275276A1 (en) * 2012-11-15 2015-10-01 Molecular Detection Israel Ltd. Pcr reaction mixtures and methods of using same
KR101586678B1 (en) 2013-11-19 2016-01-21 한국표준과학연구원 Quantitative analytical method using bacterial 16S rDNA sequences with defined single nucleotide polymorphisms
CN107513494A (en) * 2017-08-17 2017-12-26 湖北伽诺美生物科技有限公司 A kind of detection of nucleic acids card and its application method
JP7296043B2 (en) * 2017-08-30 2023-06-22 東洋製罐グループホールディングス株式会社 Method for estimating microbial density and microarray for estimating microbial density
CN113528684A (en) * 2021-08-04 2021-10-22 领航基因科技（杭州）有限公司 Digital PCR detection kit for identifying gram-negative bacteria and gram-positive bacteria and application

Family Cites Families (21)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CA1180647A (en) 1981-07-17 1985-01-08 Cavit Akin Light-emitting polynucleotide hybridization diagnostic method
DE3486467T3 (en) 1983-01-10 2004-10-14 Gen-Probe Inc., San Diego Methods for the detection, identification and quantification of organisms and viruses
US4683202A (en) 1985-03-28 1987-07-28 Cetus Corporation Process for amplifying nucleic acid sequences
US5118801A (en) 1988-09-30 1992-06-02 The Public Health Research Institute Nucleic acid process containing improved molecular switch
US5219727A (en) 1989-08-21 1993-06-15 Hoffmann-Laroche Inc. Quantitation of nucleic acids using the polymerase chain reaction
EP0452596A1 (en) * 1990-04-18 1991-10-23 N.V. Innogenetics S.A. Hybridization probes derived from the spacer region between the 16S and 23S rRNA genes for the detection of non-viral microorganisms
US5210015A (en) 1990-08-06 1993-05-11 Hoffman-La Roche Inc. Homogeneous assay system using the nuclease activity of a nucleic acid polymerase
US5994056A (en) 1991-05-02 1999-11-30 Roche Molecular Systems, Inc. Homogeneous methods for nucleic acid amplification and detection
US5750409A (en) 1991-11-18 1998-05-12 Boehringer Mannheim Gmbh Pentacyclic compounds and their use as absorption or fluorescent dyes
EP1098006A1 (en) * 1994-06-24 2001-05-09 Innogenetics N.V. Simultaneous detection, identification and differentiation of eubacterial taxa using a hybridization assay
US6001564A (en) * 1994-09-12 1999-12-14 Infectio Diagnostic, Inc. Species specific and universal DNA probes and amplification primers to rapidly detect and identify common bacterial pathogens and associated antibiotic resistance genes from clinical specimens for routine diagnosis in microbiology laboratories
AU717453B2 (en) 1995-08-17 2000-03-23 Eberhard-Karls-Universitat Tubingen Universitatsklinikum Extraction, amplification and sequential hybridization of fungal cell DNA and process for detection of fungal cells in clinical material
US5849488A (en) * 1996-02-27 1998-12-15 Oulutech Ltd. DNA-sequence-based diagnosis of mastitis from a milk sample
ATE428801T1 (en) 1996-06-04 2009-05-15 Univ Utah Res Found MONITORING HYBRIDIZATION DURING PCR
DE69738605T2 (en) 1996-06-04 2009-04-30 University Of Utah Research Foundation, Salt Lake City Container for carrying out and monitoring biological processes
DE10027113A1 (en) 1999-12-23 2001-09-27 Andreas Hoeft Method for determining microbial DNA / RNA, kit therefor and use of the method
US6605451B1 (en) 2000-06-06 2003-08-12 Xtrana, Inc. Methods and devices for multiplexing amplification reactions
JP5213297B2 (en) 2000-08-11 2013-06-19 ユニバーシティ オブ ユタ リサーチ ファウンデーション Single label oligonucleotide probe
DE10100493A1 (en) * 2001-01-08 2002-08-01 Biotecon Diagnostics Gmbh Detection of pathogenic bacteria
WO2002070728A2 (en) * 2001-03-01 2002-09-12 The Johns Hopkins University Quantitative assay for the simultaneous detection and speciation of bacterial infections
GB2377017A (en) * 2001-06-28 2002-12-31 Animal Health Inst Detection of foot and mouth disease virus

Also Published As

Publication number Publication date
AU2003289927A1 (en) 2004-06-30
CA2507240A1 (en) 2004-06-24
CA2507933A1 (en) 2004-06-24
JP2006508694A (en) 2006-03-16
AU2003300825A8 (en) 2004-06-30
US20060099596A1 (en) 2006-05-11
CN105349657A (en) 2016-02-24
EP1570086B1 (en) 2013-02-20
CA2507240C (en) 2011-05-24
JP2006518189A (en) 2006-08-10
JP4377378B2 (en) 2009-12-02
EP1570086A2 (en) 2005-09-07
EP1570086A4 (en) 2006-01-11
WO2004053457A3 (en) 2004-09-23
JP4377375B2 (en) 2009-12-02
WO2004053457A2 (en) 2004-06-24
EP1570079A1 (en) 2005-09-07
WO2004053155A1 (en) 2004-06-24
ATE474933T1 (en) 2010-08-15
DE60333480D1 (en) 2010-09-02
EP1570079B1 (en) 2010-07-21
CA2507933C (en) 2009-11-10

Similar Documents

Publication Publication Date Title
AU2003300825A1 (en) Quantitative test for bacterial pathogens
Böhm et al. Real‐time quantitative PCR: DNA determination in isolated spores of the mycorrhizal fungus Glomus mosseae and monitoring of Phytophthora infestans and Phytophthora citricola in their respective host plants
Malorny et al. Standardization of diagnostic PCR for the detection of foodborne pathogens
Jervøe‐Storm et al. Comparison of culture and real‐time PCR for detection and quantification of five putative periodontopathogenic bacteria in subgingival plaque samples
Kikuchi et al. A rapid and precise diagnostic method for detecting the pinewood nematode Bursaphelenchus xylophilus by loop-mediated isothermal amplification
US8501414B2 (en) Detection of bacteria
AUPQ909000A0 (en) A method of detecting microorganisms
EP0822261A1 (en) Methods for rapid antimicrobial susceptibility testing
ATE358733T1 (en) RAPID METHOD FOR DETECTING MICROORGANISMS IN FOOD SAMPLES
Ahsanuddin et al. Assessment of REPLI-g multiple displacement whole genome amplification (WGA) techniques for metagenomic applications
Nomura et al. New colony multiplex PCR assays for the detection and discrimination of vancomycin-resistant enterococcal species
WO1995033854B1 (en) Use of a specific marker for detection of salmonella with pcr
HK1068377A1 (en) Analytical method and kit
WO1998036096A1 (en) Detection of double-stranded dna in a homogeneous solution
Osek et al. Listeria monocytogenes in foods—From culture identification to whole‐genome characteristics
US7241566B2 (en) Methods and oligonucleotides for the detection of Salmonella sp., E. coli O157:H7, and Listeria monocytogenes
EP1947200A1 (en) Method for quantitative determination of polyneucleotides in a mixture
CN111676272A (en) Cas12 a/crRNA-based food-borne pathogenic bacteria detection method
WO2001023605A3 (en) Method and nucleic acids for determining the presence of micro-organisms specific to the brewing process
DE602006008263D1 (en) Method for the detection of Staphylococcus epidermidis
WO2005017488A3 (en) Method and system for identifying biological entities in biological and environmental samples
WO2002079512A3 (en) Method for detection and quantification of the fungus aspergillus fumigatus using quantitative pcr
Torresi et al. Comparison of multiple-locus variable number tandem repeat analysis and pulsed field gel electrophoresis in molecular subtyping of Listeria monocytogenes isolates from Italian cheese.
Zakeri et al. Use of padlock probes and rolling circle amplification (RCA) for rapid identification of Trichophyton species, related to human and animal disorder
DE602004021136D1 (en) PROCESS FOR DETECTING MYCOBACTERIUM TUBERCULOSIS

Legal Events

Date Code Title Description
MK6 Application lapsed section 142(2)(f)/reg. 8.3(3) - pct applic. not entering national phase